Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A1 F28 I1 R1
|
354 |
41.7 |
3110465 |
93.1% |
2895842 |
61.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,968,686 |
A→G |
I123M (ATA→ATG) |
mutH → |
methyl‑directed mismatch repair protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,968,686 | 0 | A | G | 95.5%
| 70.1
/ ‑3.6
| 22 | I123M (ATA→ATG) | mutH | methyl‑directed mismatch repair protein |
| Reads supporting (aligned to +/- strand): ref base A (1/0); new base G (21/0); total (22/0) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GGTGACCTGGGAAACCAGCCACGTGCGCCACAAACTCAAACGCGTACTGTGGATACCGGTTGAAGGCGAGCGCAGCATCCCGCTGGCGCAGCGTCGCGTTGG > W3110S.gb/2968632‑2968733
|
ggTGACCTGGGAAACCAGCCACGTGCGCCACAAACTCAAACGCGTACTGTGGATGCCGGTTGaa > 1:1147933/1‑64 (MQ=255)
ggTGACCTGGGAAACCAGCCACGTGCGCCACAAACTCAAACGCGTACTGTGGATGCCGGTTGaa > 1:1591005/1‑64 (MQ=255)
ggTGACCTGGGAAACCAGCCACGTGCGCCACAAACTCAAACGCGTACTGTGGATGCCGGTTGAAg > 1:99861/1‑65 (MQ=255)
ggTGACCTGGGAAACCAGCCACGTGCGCCACAAACTCAAACGCGTACTGTGGATGCCGGTTGAAg > 1:1124323/1‑65 (MQ=255)
ggTGACCTGGGAAACCAGCCACGTGCGCCACAAACTCAAACGCGTACTGTGGATGCCGGTTGAAg > 1:98741/1‑65 (MQ=255)
ggTGACCTGGGAAACCAGCCACGTGCGCCACAAACTCAAACGCGTACTGTGGATGCCGGTTGAAg > 1:492505/1‑65 (MQ=255)
ggTGACCTGGGAAACCAGCCACGTGCGCCACAAACTCAAACGCGTACTGTGGATGCCGGTTGAAg > 1:354012/1‑65 (MQ=255)
ggTGACCTGGGAAACCAGCCACGTGCGCCACAAACTCAAACGCGTACTGTGGATGCCGGTTGAAg > 1:2502319/1‑65 (MQ=255)
ggTGACCTGGGAAACCAGCCACGTGCGCCACAAACTCAAACGCGTACTGTGGATGCCGGTTGAAg > 1:1964618/1‑65 (MQ=255)
ggTGACCTGGGAAACCAGCCACGTGCGCCACAAACTCAAACGCGTACTGTGGATGCCGGTTGAAg > 1:1917364/1‑65 (MQ=255)
ggTGACCTGGGAAACCAGCCACGTGCGCCACAAACTCAAACGCGTACTGTGGATGCCGGTTGAAg > 1:1822490/1‑65 (MQ=255)
ggTGACCTGGGAAACCAGCCACGTGCGCCACAAACTCAAACGCGTACTGTGGATGCCGGTTGAAg > 1:1792484/1‑65 (MQ=255)
ggTGACCTGGGAAACCAGCCACGTGCGCCACAAACTCAAACGCGTACTGTGGATGCCGGTTGAAg > 1:1667429/1‑65 (MQ=255)
ggTGACCTGGGAAACCAGCCACGTGCGCCACAAACTCAAACGCGTACTGTGGATGCCGGTTGAAg > 1:1593336/1‑65 (MQ=255)
ggTGACCTGGGAAACCAGCCACGTGCGCCACAAACTCAAACGCGTACTGTGGATGCCGGTTGAAg > 1:137213/1‑65 (MQ=255)
ggTGACCTGGGAAACCAGCCACGTGCCCCACAAACTCAAACGCGTACTGTTGATGCCGGTTGAAg > 1:1532957/1‑65 (MQ=255)
ccTGGGAAACCAGCCACGTGCGCCACAAACTCAAACGCGTACTGTGGATGCCGGTTGAAGGCGAg > 1:191449/1‑65 (MQ=255)
ccTGGGAAACCAGCCACGTGCGCCACAAACTCAAACGCGTACTGTGGATGCCGGTTGAAGGCGAg > 1:2089795/1‑65 (MQ=255)
ccTGGGAAACCAGCCACGTGCGCCACAAACTCAAACGCGTACTGTGGATGCCGGTTGAAGGCGAg > 1:1664250/1‑65 (MQ=255)
ccTGGGAAACCAGCCACGTGCGCCACAAACTCAAACGCGTACTGTGGATGCCGGTTGAAGGCGAg > 1:489645/1‑65 (MQ=255)
ccTGGGAAACCAGCCACGTGCGCCACAAACTCAAACGCGTACTGTGGATGCCGGTTGAAGGCGAg > 1:1214453/1‑65 (MQ=255)
aaaCGCGTACTGTGGATACCGGTTGAAGGCGAGCGCAGCATCCCGCTGGCGCAGCGTCGCGTTgg > 1:2091081/1‑65 (MQ=255)
|
GGTGACCTGGGAAACCAGCCACGTGCGCCACAAACTCAAACGCGTACTGTGGATACCGGTTGAAGGCGAGCGCAGCATCCCGCTGGCGCAGCGTCGCGTTGG > W3110S.gb/2968632‑2968733
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
